That helped the country finish as toppers, with five gold and one silver.
In the qualification round, Manu had garnered 582 points with 28 inner 10s to advance to final as third-best shooter.
Rahi Sarnobat Monday booked an Olympic quota place for India with a gold in women's 25m pistol event.
The youngster shot 246.3 in the finals fetching gold while Russia's Chernousov Artem won silver with 243.8 and China's Pang Wei had to settle with bronze with a score of 220.7.
The rifle ace from Jaipur is among the five Indian shooters to have already secured 2020 Olympics quotas for the country.
Indian shooters top World Cup table in Beijing after New Delhi, coaches feel focus on junior development over last few years has been the key
With this gold, the 2018 Asian Games bronze medallist also secured a fifth quota for India in shooting for the 2020 Olympic Games to be held in Tokyo.
In the qualification round, Manu shot 575 to end in 17the spot while Heena shot 572 to finish at the 26th position.
Having won just one quota in the first three days of the competition, it was the last day for the Indians to add to it.
The coaches were also a disappointed lot. Given the familiar conditions and that the shooters had entered the stage with genuine optimism, it was an opportunity missed.
Everything goes smoothly as Horvath does enough to enter the qualification stage of the 50m rifle 3 positions at the ongoing ISSF World Cup at the Dr Karni Singh Shooting Range on Sunday.
Saurabh Chaudhary has become a household name in recent times, even though he has mostly featured in junior events till now.
Apurvi Chandela put up a performance that will be long remembered by the sizeable crowd that kept egging her on right from the start.
The IOC have withdrawn Olympic quota status of 25m rapid fire pistol event at the ISSF World Cup which kicks off here on Saturday.
The build-up had been ominous with off the field issues threatening to tarnish the upcoming ISSF World Cup without a single pellet being fired.